GSM7049587: ATAC_AECII_IAV_1; Mus musculus; ATAC-seq
FACS-sorted AECII (pooled from 5 - 6 mice/experimental group) were frozen in culture medium containing FBS and 5 % (v/v) DMSO. Cryo-preserved cells were sent to Active Motif Inc. for ATAC-sequencing. Cells were thawed in a 37 °C water bath, pelleted, washed with cold PBS, and tagmented as previously described (doi:10.1038/nmeth.2688), with some modifications based on Corces et al. (doi:10.1038/nmeth.4396). Briefly, cell pellets were resuspended in lysis buffer, pelleted, and tagmented using the enzyme and buffer provided in the Nextera Library Prep Kit (Illumina). Tagmented DNA was purified using the MinElute PCR purification kit (Qiagen), amplified with 10 cycles of PCR, and purified using Agencourt AM-Pure SPRI beads (Beckman Coulter). Resulting material was quantified using the KAPA Library Quan-tification Kit for Illumina platforms (KAPA Biosystems) and sequenced with PE42 sequencing on the NextSeq 500 sequencer (Illumina).